Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 6 of 127
Found at i:1408044 original size:13 final size:14
Alignment explanation
Indices: 1408013--1408046 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1408003 TCATTTTTAG
*
1408013 TTAAAAATTTCATC
1 TTAAAAATTTAATC
1408027 TTAAAAATTTAATC
1 TTAAAAATTTAATC
1408041 -TAAAAA
1 TTAAAAA
1408047 CTTTTTCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAAAAATTTAATC
Found at i:1408853 original size:6 final size:6
Alignment explanation
Indices: 1408844--1408877 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1408834 ATTAACAAGA
* *
1408844 CAAAGC CAAAGC CAAATC CAAATC CAAATC CAAA
1 CAAATC CAAATC CAAATC CAAATC CAAATC CAAA
1408878 ATGACCAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.53, C:0.32, G:0.06, T:0.09
Consensus pattern (6 bp):
CAAATC
Found at i:1411092 original size:13 final size:13
Alignment explanation
Indices: 1411074--1411098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1411064 ACATCTAAAC
1411074 ACATTGGTTAATT
1 ACATTGGTTAATT
1411087 ACATTGGTTAAT
1 ACATTGGTTAAT
1411099 AAGATGTCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
ACATTGGTTAATT
Found at i:1416126 original size:1 final size:1
Alignment explanation
Indices: 1416120--1416156 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
1416110 CTGGATAATG
1416120 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1416157 CAGGGAATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1418911 original size:13 final size:13
Alignment explanation
Indices: 1418895--1418919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1418885 ATAACCCCAG
1418895 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
1418908 AAAAAAGAAAAA
1 AAAAAAGAAAAA
1418920 TGCTGGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:1421339 original size:26 final size:26
Alignment explanation
Indices: 1421305--1421361 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
1421295 TATACTTGGA
* * *
1421305 TATTTGATGTATCGTGTTGATTTTAT
1 TATTCGATGTATCGTGTTCATTTGAT
*
1421331 TATTCGATGTATTGTGTTCATTTGAT
1 TATTCGATGTATCGTGTTCATTTGAT
1421357 TATTC
1 TATTC
1421362 AGTCAGATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.07, G:0.18, T:0.56
Consensus pattern (26 bp):
TATTCGATGTATCGTGTTCATTTGAT
Found at i:1431000 original size:2 final size:2
Alignment explanation
Indices: 1430993--1431027 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1430983 ATTAGCTTTG
1430993 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1431028 AGAACTTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1436229 original size:22 final size:22
Alignment explanation
Indices: 1436195--1436244 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1436185 TTTATTTGAT
* * *
1436195 AAAA-AATTTATTGGTCAATAC
1 AAAATAATCTATTGATCAATAA
1436216 AAAATAATCTATTGATCAATAA
1 AAAATAATCTATTGATCAATAA
1436238 AAAATAA
1 AAAATAA
1436245 GATAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (22 bp):
AAAATAATCTATTGATCAATAA
Found at i:1436773 original size:29 final size:29
Alignment explanation
Indices: 1436712--1436773 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
1436702 TAAATATTTT
* * *
1436712 TATTATTTTAATACTAAATAGTATTATAC
1 TATTATTTTAATAATAAATAGTATAATAA
1436741 TATTATTTTAATAATAACATA-TATAATAA
1 TATTATTTTAATAATAA-ATAGTATAATAA
1436770 TATT
1 TATT
1436774 TTTATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 26 0.90
30 3 0.10
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (29 bp):
TATTATTTTAATAATAAATAGTATAATAA
Found at i:1436988 original size:21 final size:20
Alignment explanation
Indices: 1436964--1437042 Score: 65
Period size: 21 Copynumber: 4.0 Consensus size: 20
1436954 TAATAGATAC
1436964 TTTTAATATAAAATATAAATA
1 TTTTAATAT-AAATATAAATA
1436985 TTTTAATAT---TATAAATA
1 TTTTAATATAAATATAAATA
* * * *
1437002 CTTTAATAGCAAATATTATTA
1 TTTTAATA-TAAATATAAATA
* *
1437023 TTTTAATATTAATAAAAATA
1 TTTTAATATAAATATAAATA
1437043 GTAATACTCT
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
17 15 0.34
20 7 0.16
21 22 0.50
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.46
Consensus pattern (20 bp):
TTTTAATATAAATATAAATA
Found at i:1436999 original size:17 final size:17
Alignment explanation
Indices: 1436977--1437009 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1436967 TAATATAAAA
*
1436977 TATAAATATTTTAATAT
1 TATAAATACTTTAATAT
1436994 TATAAATACTTTAATA
1 TATAAATACTTTAATA
1437010 GCAAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TATAAATACTTTAATAT
Found at i:1437009 original size:38 final size:40
Alignment explanation
Indices: 1436954--1437038 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 40
1436944 TATGATTTAA
* *
1436954 TAATAGATACTTTTAATATAAAATATAAATATTTTAATAT
1 TAATAAATACTTTTAATAGAAAATATAAATATTTTAATAT
* * *
1436994 T-ATAAATAC-TTTAATAGCAAATATTATTATTTTAATAT
1 TAATAAATACTTTTAATAGAAAATATAAATATTTTAATAT
1437032 TAATAAA
1 TAATAAA
1437039 AATAGTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 26 0.67
39 12 0.31
40 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (40 bp):
TAATAAATACTTTTAATAGAAAATATAAATATTTTAATAT
Found at i:1437133 original size:17 final size:17
Alignment explanation
Indices: 1437113--1437179 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
1437103 GTATTTTTTA
1437113 TATTAATATAATAATAT
1 TATTAATATAATAATAT
*
1437130 TATTAAAAT-ATAATTAT
1 TATTAATATAATAA-TAT
* *
1437147 TCTTGAATATTAATAATTT
1 TATT-AATA-TAATAATAT
*
1437166 TAATAATA-AATAAT
1 TATTAATATAATAAT
1437180 TTCAATATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
16 10 0.25
17 14 0.35
18 7 0.17
19 5 0.12
20 4 0.10
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (17 bp):
TATTAATATAATAATAT
Found at i:1437186 original size:25 final size:26
Alignment explanation
Indices: 1437158--1437221 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
1437148 CTTGAATATT
1437158 AATAATTTTAATAATAAA-TAATTTC
1 AATAATTTTAATAATAAATTAATTTC
* *
1437183 AATATATTTTAATAATAAATTATTTTT
1 AATA-ATTTTAATAATAAATTAATTTC
1437210 AA-AATTTTAATA
1 AATAATTTTAATA
1437222 GTTATATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 13 0.37
26 15 0.43
27 7 0.20
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATAATTTTAATAATAAATTAATTTC
Found at i:1437906 original size:318 final size:319
Alignment explanation
Indices: 1437343--1437973 Score: 1237
Period size: 318 Copynumber: 2.0 Consensus size: 319
1437333 AAATATTTTC
1437343 TAAAAATTATTTTTTGAGAGTCAAACTTTACAAAATAAACGGAGCCTTTGTTAGTAACAAAATTC
1 TAAAAATTATTTTTTGAGAGTCAAACTTTACAAAATAAACGGAGCCTTTGTTAGTAACAAAATTC
1437408 TTCAACAAAATGAAATGTGTATGGTTGATTTAAGTTCCTAATTTTTTAAAACAATCATTTTTTAA
66 TTCAACAAAATGAAATGTGTATGGTTGATTTAAGTTCCTAATTTTTTAAAACAATCATTTTTTAA
1437473 AATACAGATTTCGTCTTTAATTTTTTTTTTTTAACAAAGAAAGCTACAATTTAAGGTTAAAAGAA
131 AATACAGATTTCGTCTTTAATTTTTTTTTTTTAACAAAGAAAGCTACAATTTAAGGTTAAAAGAA
1437538 AAATTATAAATGTTGAAAATTTAAAATATAAATTTATTAAACGTTAGAGTAACGATATGAATCAA
196 AAATTATAAATGTTGAAAATTTAAAATATAAATTTATTAAACGTTAGAGTAACGATATGAATCAA
* *
1437603 TTAAATTAAATTTAAAATTTATTTAATCTTTAATTTGTTTATGTTCTTTTATCATAATA
261 TTAAATTAAATTTAAAATTTATTTAATCTTTAATTTGTTTATATACTTTTATCATAATA
1437662 TAAAAATTATTTTTTGAGAGTCAAACTTTACAAAATAAACGGAGCCTTTGTTAGTAACAAAATTC
1 TAAAAATTATTTTTTGAGAGTCAAACTTTACAAAATAAACGGAGCCTTTGTTAGTAACAAAATTC
1437727 TTCAACAAAATGAAATGTGTATGGTTGATTTAAGTTCCTAATTTTTTAAAACAATCATTTTTTAA
66 TTCAACAAAATGAAATGTGTATGGTTGATTTAAGTTCCTAATTTTTTAAAACAATCATTTTTTAA
1437792 AATACAGATTTCGTCTTTAA-TTTTTTTTTTTAACAAAGAAAGCTACAATTTAAGGTTAAAAGAA
131 AATACAGATTTCGTCTTTAATTTTTTTTTTTTAACAAAGAAAGCTACAATTTAAGGTTAAAAGAA
1437856 AAATTATAAATGTTGAAAATTTAAAATATAAATTTATTAAACGTTAGAGTAACGATATGAATCAA
196 AAATTATAAATGTTGAAAATTTAAAATATAAATTTATTAAACGTTAGAGTAACGATATGAATCAA
1437921 TTAAATTAAATTTAAAATTTATTTAATCTTTAATTTGTTTATATACTTTTATC
261 TTAAATTAAATTTAAAATTTATTTAATCTTTAATTTGTTTATATACTTTTATC
1437974 GTATGAATAT
Statistics
Matches: 310, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
318 160 0.52
319 150 0.48
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (319 bp):
TAAAAATTATTTTTTGAGAGTCAAACTTTACAAAATAAACGGAGCCTTTGTTAGTAACAAAATTC
TTCAACAAAATGAAATGTGTATGGTTGATTTAAGTTCCTAATTTTTTAAAACAATCATTTTTTAA
AATACAGATTTCGTCTTTAATTTTTTTTTTTTAACAAAGAAAGCTACAATTTAAGGTTAAAAGAA
AAATTATAAATGTTGAAAATTTAAAATATAAATTTATTAAACGTTAGAGTAACGATATGAATCAA
TTAAATTAAATTTAAAATTTATTTAATCTTTAATTTGTTTATATACTTTTATCATAATA
Found at i:1441918 original size:23 final size:23
Alignment explanation
Indices: 1441888--1441934 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1441878 TGAAAGTATG
1441888 CATGAAATAAGGCAGATCTTTGA
1 CATGAAATAAGGCAGATCTTTGA
1441911 CATGAAATAAGGCAGATCTTTGA
1 CATGAAATAAGGCAGATCTTTGA
1441934 C
1 C
1441935 TTGTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (23 bp):
CATGAAATAAGGCAGATCTTTGA
Found at i:1445442 original size:35 final size:36
Alignment explanation
Indices: 1445395--1445469 Score: 125
Period size: 35 Copynumber: 2.1 Consensus size: 36
1445385 TAACTTGTTT
1445395 TTTTATACTTTATTTTTTCAAACCAAAATTTATAA-
1 TTTTATACTTTATTTTTTCAAACCAAAATTTATAAG
* *
1445430 TTTTATATTTTATTTTTTCAAATCAAAATTTATAAG
1 TTTTATACTTTATTTTTTCAAACCAAAATTTATAAG
1445466 TTTT
1 TTTT
1445470 TAGTTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
35 33 0.89
36 4 0.11
ACGTcount: A:0.35, C:0.08, G:0.01, T:0.56
Consensus pattern (36 bp):
TTTTATACTTTATTTTTTCAAACCAAAATTTATAAG
Found at i:1451418 original size:4 final size:4
Alignment explanation
Indices: 1451409--1451439 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1451399 GGCTGAGATG
1451409 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
1451440 CCAGCTGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:1452434 original size:26 final size:26
Alignment explanation
Indices: 1452398--1452457 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
1452388 CCTCTCTTAT
1452398 CAAAGAAGTCTTCAAAGGAGGGGAAA
1 CAAAGAAGTCTTCAAAGGAGGGGAAA
* *
1452424 CAAAGAAGTCTTCAGAGTAGGGGAAA
1 CAAAGAAGTCTTCAAAGGAGGGGAAA
1452450 CAAAGAAG
1 CAAAGAAG
1452458 AGAAAGGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.30, T:0.12
Consensus pattern (26 bp):
CAAAGAAGTCTTCAAAGGAGGGGAAA
Found at i:1456384 original size:26 final size:26
Alignment explanation
Indices: 1456340--1456392 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
1456330 GAATGACATC
*
1456340 AACTCATTATAATAGGATAAAAAAAA
1 AACTCATTATAATAAGATAAAAAAAA
*
1456366 AACTCATTAT-ATAAAGATAAAATAAA
1 AACTCATTATAAT-AAGATAAAAAAAA
1456392 A
1 A
1456393 TTATTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (26 bp):
AACTCATTATAATAAGATAAAAAAAA
Found at i:1462509 original size:2 final size:2
Alignment explanation
Indices: 1462504--1462541 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1462494 CCCATGCGTG
1462504 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1462542 TATTTTAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1462528 original size:17 final size:17
Alignment explanation
Indices: 1462506--1462539 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1462496 CATGCGTGTA
1462506 TATATATATATATATAT
1 TATATATATATATATAT
1462523 TATATATATATATATAT
1 TATATATATATATATAT
1462540 ATTATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:1462528 original size:19 final size:19
Alignment explanation
Indices: 1462504--1462544 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
1462494 CCCATGCGTG
1462504 TATATATATATATATATAT
1 TATATATATATATATATAT
1462523 TATATATATATATATATAT
1 TATATATATATATATATAT
1462542 TAT
1 TAT
1462545 TTTAAGGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATATATATATATATAT
Found at i:1464510 original size:16 final size:16
Alignment explanation
Indices: 1464489--1464526 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
1464479 TGATATAAAA
*
1464489 TTATTATTATTTTATC
1 TTATTATAATTTTATC
1464505 TTATTAATAATTTTATC
1 TTATT-ATAATTTTATC
1464522 -TATTA
1 TTATTA
1464527 AACATGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 9 0.45
17 10 0.50
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTATAATTTTATC
Found at i:1464607 original size:2 final size:2
Alignment explanation
Indices: 1464600--1464630 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1464590 CGAAGACGAT
*
1464600 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1464631 TATTTTCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1467484 original size:17 final size:17
Alignment explanation
Indices: 1467462--1467497 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1467452 AATTAGTTAA
1467462 TGTCAATGAATTTAACG
1 TGTCAATGAATTTAACG
*
1467479 TGTCAATGAATTTTACG
1 TGTCAATGAATTTAACG
1467496 TG
1 TG
1467498 GGTCAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (17 bp):
TGTCAATGAATTTAACG
Found at i:1468285 original size:3 final size:3
Alignment explanation
Indices: 1468277--1468318 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
1468267 CTTTCTTTTT
*
1468277 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1468319 ACTTCAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1470528 original size:22 final size:22
Alignment explanation
Indices: 1470503--1470641 Score: 120
Period size: 22 Copynumber: 6.3 Consensus size: 22
1470493 CTAAGTTACC
* *
1470503 AATGGTTTATTATTAAATTATT
1 AATGATTTACTATTAAATTATT
*
1470525 AATGATTTACTATTAAGTTATT
1 AATGATTTACTATTAAATTATT
* *
1470547 GATGATTTACTATTAAGTTATT
1 AATGATTTACTATTAAATTATT
* * * *
1470569 GATGATTTAGTACTAAGTTATT
1 AATGATTTACTATTAAATTATT
* * *
1470591 GATAATTTATTA-TAAAGTTA-T
1 AATGATTTACTATTAAA-TTATT
* *
1470612 AACTAATTTACTATAAAATTATT
1 AA-TGATTTACTATTAAATTATT
1470635 AATGATT
1 AATGATT
1470642 ATGATATATA
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
21 5 0.05
22 89 0.89
23 6 0.06
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (22 bp):
AATGATTTACTATTAAATTATT
Found at i:1470542 original size:44 final size:44
Alignment explanation
Indices: 1470491--1470588 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
1470481 ATTGATTCAT
* *
1470491 TACTAAGTTACCAATGGTTTATTATTAAATTATTAATGATTTAC
1 TACTAAGTTACCAATGATTTACTATTAAATTATTAATGATTTAC
* *** * * *
1470535 TATTAAGTTATTGATGATTTACTATTAAGTTATTGATGATTTAG
1 TACTAAGTTACCAATGATTTACTATTAAATTATTAATGATTTAC
1470579 TACTAAGTTA
1 TACTAAGTTA
1470589 TTGATAATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (44 bp):
TACTAAGTTACCAATGATTTACTATTAAATTATTAATGATTTAC
Found at i:1470589 original size:44 final size:44
Alignment explanation
Indices: 1470508--1470624 Score: 146
Period size: 44 Copynumber: 2.7 Consensus size: 44
1470498 TTACCAATGG
* * *
1470508 TTTATTATTAAATTATTAATGATTTACTATTAAGTTATTGATGA
1 TTTATTATTAAGTTATTAATGATTTACTACTAAGTTATTGATAA
* * *
1470552 TTTACTATTAAGTTATTGATGATTTAGTACTAAGTTATTGATAA
1 TTTATTATTAAGTTATTAATGATTTACTACTAAGTTATTGATAA
* *
1470596 TTTATTATAAAGTTA-TAACTAATTTACTA
1 TTTATTATTAAGTTATTAA-TGATTTACTA
1470625 TAAAATTATT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 2 0.03
44 59 0.97
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (44 bp):
TTTATTATTAAGTTATTAATGATTTACTACTAAGTTATTGATAA
Found at i:1471287 original size:17 final size:17
Alignment explanation
Indices: 1471265--1471300 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1471255 AATTAGTTAA
1471265 TGTCAATGAATTTAACG
1 TGTCAATGAATTTAACG
*
1471282 TGTCAATGAATTTTACG
1 TGTCAATGAATTTAACG
1471299 TG
1 TG
1471301 GGTCAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (17 bp):
TGTCAATGAATTTAACG
Found at i:1472415 original size:12 final size:12
Alignment explanation
Indices: 1472398--1472427 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1472388 ATCTTCATTC
1472398 TTTTTTTCTAAT
1 TTTTTTTCTAAT
*
1472410 TTTTTTTTTAAT
1 TTTTTTTCTAAT
1472422 TTTTTT
1 TTTTTT
1472428 AACTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTCTAAT
Found at i:1474321 original size:22 final size:22
Alignment explanation
Indices: 1474296--1474542 Score: 153
Period size: 22 Copynumber: 11.3 Consensus size: 22
1474286 TTACCAGTGG
*
1474296 TTTATTATTAAATTATTAATGA
1 TTTACTATTAAATTATTAATGA
* *
1474318 TTTACTATTAAGTTATTGATGA
1 TTTACTATTAAATTATTAATGA
* *
1474340 TTTACTATTAAGTTATTGATGA
1 TTTACTATTAAATTATTAATGA
* * * *
1474362 TTTAGTATTAAGTTATTGATAA
1 TTTACTATTAAATTATTAATGA
* *
1474384 TTTATTA-TAAAGTTA-TAACTAA
1 TTTACTATTAAA-TTATTAA-TGA
* *
1474406 TTTACTATGAAATTATCAATGA
1 TTTACTATTAAATTATTAATGA
** *
1474428 TTTACTACAAAATTATTATTGA
1 TTTACTATTAAATTATTAATGA
* * * * *
1474450 TATACAACTAAGTTATAAATGA
1 TTTACTATTAAATTATTAATGA
* * * ** *
1474472 CTTATTACTATGTTATTAGTGA
1 TTTACTATTAAATTATTAATGA
* * *
1474494 TTTATTGTTAAA-T-TTAGTGA
1 TTTACTATTAAATTATTAATGA
*
1474514 TTTACTATTATATTATT-ATGCA
1 TTTACTATTAAATTATTAATG-A
1474536 TTTACTA
1 TTTACTA
1474543 ATTATCATTG
Statistics
Matches: 180, Mismatches: 38, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
20 16 0.09
21 9 0.05
22 150 0.83
23 5 0.03
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (22 bp):
TTTACTATTAAATTATTAATGA
Found at i:1474371 original size:66 final size:65
Alignment explanation
Indices: 1474296--1474542 Score: 180
Period size: 66 Copynumber: 3.8 Consensus size: 65
1474286 TTACCAGTGG
*
1474296 TTTATTATTAAATTATTAATGATTTACTATTAAGTTATTGATGATTTACTATTAAGTTATTGATG
1 TTTATTATTAAATTATTAATGATTTACTATTAAGTTATTAATGATTTACTATTAAGTTATT-ATG
1474361 A
65 A
* * * * * * * * * *
1474362 TTTAGTATTAAGTTATTGATAATTTATTATAAAGTTA-TAACTAATTTACTATGAAATTATCAAT
1 TTTATTATTAAATTATTAATGATTTACTATTAAGTTATTAA-TGATTTACTATTAAGTTAT-TAT
1474426 GA
64 GA
* ** * * * * * * * * *
1474428 TTTACTACAAAATTATTATTGATATACAACTAAGTTATAAATGACTTATTACTATGTTATTAGTG
1 TTTATTATTAAATTATTAATGATTTACTATTAAGTTATTAATGATTTACTATTAAGTTATTA-TG
1474493 A
65 A
* *
1474494 TTTATTGTTAAA-T-TTAGTGATTTACTATTATA-TTATT-ATGCATTTACTA
1 TTTATTATTAAATTATTAATGATTTACTATTA-AGTTATTAATG-ATTTACTA
1474543 ATTATCATTG
Statistics
Matches: 132, Mismatches: 43, Indels: 14
0.70 0.23 0.07
Matches are distributed among these distances:
63 3 0.02
64 23 0.17
65 5 0.04
66 99 0.75
67 2 0.02
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (65 bp):
TTTATTATTAAATTATTAATGATTTACTATTAAGTTATTAATGATTTACTATTAAGTTATTATGA
Found at i:1474976 original size:11 final size:10
Alignment explanation
Indices: 1474962--1475021 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 10
1474952 TATAAACGAT
1474962 TTATTACTAAG
1 TTATTA-TAAG
*
1474973 TTATTGATAAT
1 TTATT-ATAAG
1474984 TTATTATTAAG
1 TTATTA-TAAG
*
1474995 TTATTAATAAT
1 TTATT-ATAAG
1475006 TTATTATAATG
1 TTATTATAA-G
1475017 TTATT
1 TTATT
1475022 TCTGATTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 5 0.12
11 34 0.83
12 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.55
Consensus pattern (10 bp):
TTATTATAAG
Found at i:1474985 original size:22 final size:22
Alignment explanation
Indices: 1474893--1475046 Score: 118
Period size: 22 Copynumber: 7.0 Consensus size: 22
1474883 ATCTTATCAC
* *
1474893 TGATTTATTACTAAATTA-TCA
1 TGATTTATTACTAAGTTATTAA
*
1474914 TGATTTATCACTAAGTTA-TAGA
1 TGATTTATTACTAAGTTATTA-A
* * * *
1474936 TGATTTACTGCTAAATTATAAA
1 TGATTTATTACTAAGTTATTAA
* *
1474958 CGATTTATTACTAAGTTATTGA
1 TGATTTATTACTAAGTTATTAA
* *
1474980 TAATTTATTATTAAGTTATTAA
1 TGATTTATTACTAAGTTATTAA
* **
1475002 TAATTTATTA-TAATGTTATTTC
1 TGATTTATTACTAA-GTTATTAA
*
1475024 TGATTTACTA-TAAAGTTATTAA
1 TGATTTATTACT-AAGTTATTAA
1475046 T
1 T
1475047 AATTAACTAA
Statistics
Matches: 105, Mismatches: 24, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
21 20 0.19
22 82 0.78
23 3 0.03
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.48
Consensus pattern (22 bp):
TGATTTATTACTAAGTTATTAA
Found at i:1475055 original size:22 final size:22
Alignment explanation
Indices: 1474970--1475055 Score: 91
Period size: 22 Copynumber: 3.9 Consensus size: 22
1474960 ATTTATTACT
* * *
1474970 AAGTTATTGATAATTTATTATT
1 AAGTTATTAATAATTTACTATA
*
1474992 AAGTTATTAATAATTTATTATA
1 AAGTTATTAATAATTTACTATA
* ** *
1475014 ATGTTATTTCTGATTTACTATA
1 AAGTTATTAATAATTTACTATA
*
1475036 AAGTTATTAATAATTAACTA
1 AAGTTATTAATAATTTACTA
1475056 ATTTACAATT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (22 bp):
AAGTTATTAATAATTTACTATA
Found at i:1475081 original size:22 final size:22
Alignment explanation
Indices: 1475056--1475426 Score: 105
Period size: 22 Copynumber: 16.9 Consensus size: 22
1475046 TAATTAACTA
* *
1475056 ATTTACAATTAAATTATCATTG
1 ATTTACTATTAAATTATCAATG
* *
1475078 ATTTA-TAACTAAATTATCACTG
1 ATTTACT-ATTAAATTATCAATG
* *
1475100 ATTTA-TAACTAAGTTATCAAT-
1 ATTTACT-ATTAAATTATCAATG
*** * *
1475121 ATTTTACTATTGCGTTATTAGTG
1 A-TTTACTATTAAATTATCAATG
* *
1475144 ATTTACTATTAAGTTATCAATA
1 ATTTACTATTAAATTATCAATG
* *
1475166 ATTTACTACTAAATTATTAATG
1 ATTTACTATTAAATTATCAATG
* * *
1475188 ATTTACTATTATACTAT-TATG
1 ATTTACTATTAAATTATCAATG
* ** *
1475209 CATTTGCTACTT-TGTTATCATTG
1 -ATTTACTA-TTAAATTATCAATG
* * * * *
1475232 ATTTACTATTGAGTT-TTAGTA
1 ATTTACTATTAAATTATCAATG
* * *
1475253 ATTAATTATTAAATTATCATTG
1 ATTTACTATTAAATTATCAATG
** **
1475275 ATTTA-TCGCTAAATTATTTATG
1 ATTTACT-ATTAAATTATCAATG
* *
1475297 ATTTACTACTAAATTTAT-AATTT
1 ATTTACTATTAAA-TTATCAA-TG
* * *
1475320 AATTACTATTAAACTA--AACTAA
1 ATTTACTATTAAATTATCAA-T-G
*** * *
1475342 ATTTACTATTATGCTATCACTA
1 ATTTACTATTAAATTATCAATG
* * * * *
1475364 ATTTACTACTAAGTTTTCATTA
1 ATTTACTATTAAATTATCAATG
* *
1475386 ATTTACTACTAAATTATTAATG
1 ATTTACTATTAAATTATCAATG
* *
1475408 ATTAACTATTAAGTTATCA
1 ATTTACTATTAAATTATCA
1475427 TTTTTTATGA
Statistics
Matches: 261, Mismatches: 72, Indels: 32
0.72 0.20 0.09
Matches are distributed among these distances:
21 24 0.09
22 212 0.81
23 24 0.09
24 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (22 bp):
ATTTACTATTAAATTATCAATG
Found at i:1475183 original size:44 final size:44
Alignment explanation
Indices: 1475056--1475426 Score: 139
Period size: 44 Copynumber: 8.4 Consensus size: 44
1475046 TAATTAACTA
* * * * * *
1475056 ATTTACAATTAAATTATCATTGATTTA-TAACTAAATTATCACTG
1 ATTTACTATTAAGTTATCAATAATTTACT-ACTAAATTATTAATG
* * * *** *
1475100 ATTTA-TAACTAAGTTATCAATATTTTACTATTGCGTTATTAGTG
1 ATTTACT-ATTAAGTTATCAATAATTTACTACTAAATTATTAATG
1475144 ATTTACTATTAAGTTATCAATAATTTACTACTAAATTATTAATG
1 ATTTACTATTAAGTTATCAATAATTTACTACTAAATTATTAATG
* * * * *** * *
1475188 ATTTACTATTATA-CTAT-TATGCATTTGCTACTTTGTTATCATTG
1 ATTTACTATTA-AGTTATCAAT-AATTTACTACTAAATTATTAATG
* * * * * * * *
1475232 ATTTACTATTGAGTT-TTAGTAATTAATTATTAAATTATCATTG
1 ATTTACTATTAAGTTATCAATAATTTACTACTAAATTATTAATG
** * ** * *
1475275 ATTTA-TCGCTAAATTATTTATGATTTACTACTAAATT-TATAATTT
1 ATTTACT-ATTAAGTTATCAATAATTTACTACTAAATTAT-TAA-TG
* ** * *** * * *
1475320 AATTACTATTAAACTA--AACTAAATTTACTATTATGCTATCACTA
1 ATTTACTATTAAGTTATCAA-T-AATTTACTACTAAATTATTAATG
* * *
1475364 ATTTACTACTAAGTTTTCATTAATTTACTACTAAATTATTAATG
1 ATTTACTATTAAGTTATCAATAATTTACTACTAAATTATTAATG
*
1475408 ATTAACTATTAAGTTATCA
1 ATTTACTATTAAGTTATCA
1475427 TTTTTTATGA
Statistics
Matches: 228, Mismatches: 82, Indels: 34
0.66 0.24 0.10
Matches are distributed among these distances:
42 1 0.00
43 30 0.13
44 167 0.73
45 27 0.12
46 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (44 bp):
ATTTACTATTAAGTTATCAATAATTTACTACTAAATTATTAATG
Found at i:1475463 original size:22 final size:22
Alignment explanation
Indices: 1475438--1475496 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
1475428 TTTTTATGAA
*
1475438 GTTATCATTAATTTACAACTAT
1 GTTATAATTAATTTACAACTAT
* **
1475460 GTTATTATGCATTTACAACTAT
1 GTTATAATTAATTTACAACTAT
*
1475482 GTTATAATTGATTTA
1 GTTATAATTAATTTA
1475497 TTATTAAGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.47
Consensus pattern (22 bp):
GTTATAATTAATTTACAACTAT
Found at i:1475551 original size:22 final size:22
Alignment explanation
Indices: 1475526--1475623 Score: 79
Period size: 22 Copynumber: 4.3 Consensus size: 22
1475516 AGACTGTTAT
*
1475526 ATTATTACTAATTTACTACTAA
1 ATTATTACTAATTTACTATTAA
* * * *
1475548 ATTATAATTGATATACTATTAA
1 ATTATTACTAATTTACTATTAA
*
1475570 ATTATATCTCTAATTTACTATATTAA
1 ATTAT-T-ACTAATTTAC--TATTAA
* *
1475596 ATTATTACTGATTAACTATTAA
1 ATTATTACTAATTTACTATTAA
*
1475618 TTTATT
1 ATTATT
1475624 GATGATTATT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
22 33 0.57
24 13 0.22
25 1 0.02
26 11 0.19
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTATTACTAATTTACTATTAA
Found at i:1475614 original size:48 final size:46
Alignment explanation
Indices: 1475533--1475622 Score: 110
Period size: 48 Copynumber: 1.9 Consensus size: 46
1475523 TATATTATTA
*
1475533 CTAATTTACTACTAAATTATAATTGATATACTATTAAATTATATCT
1 CTAATTTACTACTAAATTATAACTGATATACTATTAAATTATATCT
* * *
1475579 CTAATTTACTATATTAAATTATTACTGAT-TAACTATTAATTTAT
1 CTAATTTAC--TACTAAATTATAACTGATAT-ACTATTAAATTAT
1475623 TGATGATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
46 9 0.24
47 1 0.03
48 27 0.73
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (46 bp):
CTAATTTACTACTAAATTATAACTGATATACTATTAAATTATATCT
Found at i:1475629 original size:22 final size:21
Alignment explanation
Indices: 1475590--1475662 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
1475580 TAATTTACTA
*
1475590 TATTAAATTATT-ACTGATTAAC
1 TATTAATTTATTGA-TGATT-AC
*
1475612 TATTAATTTATTGATGATTAT
1 TATTAATTTATTGATGATTAC
1475633 TATTAAGTTATATTGAT--TTAC
1 TATTAA-TT-TATTGATGATTAC
*
1475654 TTTTAATTT
1 TATTAATTT
1475663 TCAATTATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 1 0.02
20 2 0.05
21 15 0.34
22 18 0.41
23 8 0.18
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (21 bp):
TATTAATTTATTGATGATTAC
Found at i:1475710 original size:22 final size:21
Alignment explanation
Indices: 1475669--1475727 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
1475659 ATTTTCAATT
* * *
1475669 ATTAATTACTACTTAGTTATAA
1 ATTATTTACTACTAAATTAT-A
*
1475691 ATTATTTACTACTAAATTATC
1 ATTATTTACTACTAAATTATA
*
1475712 ATTGATTTATTACTAA
1 ATT-ATTTACTACTAA
1475728 GCTATTTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 3 0.10
22 28 0.90
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.47
Consensus pattern (21 bp):
ATTATTTACTACTAAATTATA
Found at i:1476049 original size:22 final size:22
Alignment explanation
Indices: 1476024--1476128 Score: 111
Period size: 22 Copynumber: 4.8 Consensus size: 22
1476014 ACTAAATCTT
1476024 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTA
* * *
1476046 ATTTACTATTAAGATATCAGTG
1 ATTTACTATTAAGTTATCATTA
* * *
1476068 ATTTATTACTAAGTTATCAATA
1 ATTTACTATTAAGTTATCATTA
* * *
1476090 ATTAACTACTAAGTTATCATTT
1 ATTTACTATTAAGTTATCATTA
**
1476112 ATTTTTTATTAAGTTAT
1 ATTTACTATTAAGTTAT
1476129 TTTTAATTAC
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 67 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:1476136 original size:44 final size:44
Alignment explanation
Indices: 1476024--1476137 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 44
1476014 ACTAAATCTT
* * *
1476024 ATTTACTATTAAGTTATCATTAATTTACTATTAAGATATCAGTG
1 ATTTATTATTAAGTTATCATTAATTAACTACTAAGATATCAGTG
* * * * *
1476068 ATTTATTACTAAGTTATCAATAATTAACTACTAAGTTATCATTT
1 ATTTATTATTAAGTTATCATTAATTAACTACTAAGATATCAGTG
* **
1476112 ATTTTTTATTAAGTTATTTTTAATTA
1 ATTTATTATTAAGTTATCATTAATTA
1476138 CTAATATGTG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (44 bp):
ATTTATTATTAAGTTATCATTAATTAACTACTAAGATATCAGTG
Found at i:1476272 original size:22 final size:22
Alignment explanation
Indices: 1476247--1476456 Score: 64
Period size: 22 Copynumber: 9.6 Consensus size: 22
1476237 ATATATAATT
1476247 TTATCAATTATTTACTACTAAA
1 TTATCAATTATTTACTACTAAA
* * * *
1476269 TTATTATTTATTTACTATTAAG
1 TTATCAATTATTTACTACTAAA
*
1476291 TTAT-TATTATTTTACTA-TGAAA
1 TTATCAATTA-TTTACTACT-AAA
* *
1476313 TTATTC-ATAATTTACTA-TACAG
1 TTA-TCAATTATTTACTACTA-AA
*
1476335 TTATC-ATTAATTTAGTA-TAAA
1 TTATCAATT-ATTTACTACTAAA
* **
1476356 GTTAT-TATTGATTTTGT-CTAAA
1 -TTATCAATT-ATTTACTACTAAA
* * * *
1476378 TTATCACTAATGTA-TAATAAAA
1 TTATCAATTATTTACTACT-AAA
* * *
1476400 TTATCAATAATTTGCTACTATA
1 TTATCAATTATTTACTACTAAA
* * *
1476422 TTAT-TATACATTTACTACTAAG
1 TTATCAAT-TATTTACTACTAAA
1476444 TTAT-AATTGATTT
1 TTATCAATT-ATTT
1476457 CTTTTATAAT
Statistics
Matches: 141, Mismatches: 32, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
20 1 0.01
21 20 0.14
22 113 0.80
23 7 0.05
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (22 bp):
TTATCAATTATTTACTACTAAA
Found at i:1476314 original size:44 final size:42
Alignment explanation
Indices: 1476247--1476369 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 42
1476237 ATATATAATT
*
1476247 TTATCAATTATTTACTACTAAATTATTATTTATTTACTATTA-AG
1 TTATC-ATTATTTACTA-TAAATTATTATTAATTTACTA-TACAG
*
1476291 TTATTATTATTTTACTATGAAATTATTCA-TAATTTACTATACAG
1 TTATCATTA-TTTACTAT-AAATTATT-ATTAATTTACTATACAG
* *
1476335 TTATCATTAATTTAGTATAAAGTTATTATTGATTT
1 TTATCATT-ATTTACTATAAA-TTATTATTAATTT
1476370 TGTCTAAATT
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
43 11 0.16
44 54 0.81
45 2 0.03
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (42 bp):
TTATCATTATTTACTATAAATTATTATTAATTTACTATACAG
Found at i:1477948 original size:17 final size:16
Alignment explanation
Indices: 1477914--1477952 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1477904 ATGGTTTCAT
1477914 AAAAATATCTTAAATA
1 AAAAATATCTTAAATA
*
1477930 AAAAATAT-TTGAAATT
1 AAAAATATCTT-AAATA
1477946 AAAAATA
1 AAAAATA
1477953 AAAGAATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
AAAAATATCTTAAATA
Found at i:1479033 original size:150 final size:153
Alignment explanation
Indices: 1478745--1479021 Score: 436
Period size: 150 Copynumber: 1.8 Consensus size: 153
1478735 AATTGATTTA
* * *
1478745 AATTTAAATAACTAACAAATAAAATGTTTATATATTTAATGGCAAATAATCTTTATTAAATAAAT
1 AATTTAAATAACTAACAAATAAAATGTATATATATTTAATGGAAAATAATCTTTAATAAATAAAT
* *
1478810 AAATAAATGCTAGAAATTTAAAGGTAAATTTGTTATTTTTTAAAATTTATAAGGATATTTATGCT
66 AAATAAATGCTAAAAATTTAAAGGTAAATTAGTTATTTTTTAAAATTTATAAGGATATTTATGCT
1478875 ATTCACTTTAGCACTTTTGGATT
131 ATTCACTTTAGCACTTTTGGATT
* * *
1478898 AATTTAAATAATTAACTAAT-AAAT-TATATATATTTAATGGAAAATAATCTTTAATACATAAAT
1 AATTTAAATAACTAACAAATAAAATGTATATATATTTAATGGAAAATAATCTTTAATAAATAAAT
*
1478961 AAA-AAATGCTAAAAATTTAAAGGTAAATTAGTT-TTTTCTTAAAATTTGTAAGGATATTTAT
66 AAATAAATGCTAAAAATTTAAAGGTAAATTAGTTATTTT-TTAAAATTTATAAGGATATTTAT
1479022 ATCGTTCACT
Statistics
Matches: 114, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
149 4 0.04
150 50 0.44
151 38 0.33
152 4 0.04
153 18 0.16
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.41
Consensus pattern (153 bp):
AATTTAAATAACTAACAAATAAAATGTATATATATTTAATGGAAAATAATCTTTAATAAATAAAT
AAATAAATGCTAAAAATTTAAAGGTAAATTAGTTATTTTTTAAAATTTATAAGGATATTTATGCT
ATTCACTTTAGCACTTTTGGATT
Found at i:1479065 original size:2 final size:2
Alignment explanation
Indices: 1479058--1479101 Score: 61
Period size: 2 Copynumber: 21.5 Consensus size: 2
1479048 TTTACACTTT
* *
1479058 TA TA TA TA GA TGA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1479101 T
1 T
1479102 TCATATACAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1488807 original size:15 final size:15
Alignment explanation
Indices: 1488787--1488823 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
1488777 TTAAATTTTT
1488787 ATTAAAAATTAATAA
1 ATTAAAAATTAATAA
*
1488802 ATT-AAAATTGATAA
1 ATTAAAAATTAATAA
1488816 ATTAAAAA
1 ATTAAAAA
1488824 ATTTCACCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
ATTAAAAATTAATAA
Found at i:1491508 original size:5 final size:5
Alignment explanation
Indices: 1491500--1491524 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1491490 AATGATATTA
1491500 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
1491525 AATTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:1493972 original size:259 final size:256
Alignment explanation
Indices: 1493486--1493977 Score: 580
Period size: 259 Copynumber: 1.9 Consensus size: 256
1493476 AGTGTCTATG
* *
1493486 GAAACTCTATTGATGATTCTTGCATGGATGCATTATGACATCTCCCTTTACTTTTGTAGCATTGA
1 GAAACTCTATTAATGATTCTTGCATGGATGCATTATGACATCTCCCTTTACTTTTGCAGCATTGA
* * ** *
1493551 TTAGTCTCTGAGAAACGCTATAAAAAACCATCGTACGAACTGGAATGAATGATAAGTGATTGCTA
66 TTAGTCTCTGAGAAACACTATAAAAAACCATCATACGAAAGGGAAAGAATGATAAGTGATTGCTA
* * ***
1493616 ATTGTTATGTAAATCAGTGGCAAGCATGCATCCATTTTGGAGCTGCCAAATGAATCAGTGATACC
131 ATTGCTATGTAAATCAATGGCAAGCATGCATCCATTCCAGAGCTGCCAAATGAATCAGTGATACC
* * * *
1493681 CGGAAGCACATCAGAGGTGCTTTTAATCACTTAGCTTGTTCACCATAATCGAGTGTTTTTA
196 CGGAAGCACACCAGAGATACTTGTAATCACTTAGCTTGTTCACCATAATCGAGTGTTTTTA
* ** * * *
1493742 GAAACTCTCTTAATGATTCTTGCATGGATGCATTATGATGTTTCCCTTTACTTTTTGCATCGTTG
1 GAAACTCTATTAATGATTCTTGCATGGATGCATTATGACATCTCCCTTTAC-TTTTGCAGCATTG
* * * *
1493807 ATTAGTCT-TAGTGAAACACTATAAAAAAAACCATCATCCTAAAGGGAAAGAATGATGAA-TGCT
65 ATTAGTCTCT-GAGAAACACTAT--AAAAAACCATCATACGAAAGGGAAAGAATGAT-AAGTGAT
** *
1493870 TG-TATATTGCTATGTAAATCAATGGCAAGCATGGTTCC-TTCCCAGAGCTGCCGAATGAATCAG
126 TGCTA-ATTGCTATGTAAATCAATGGCAAGCATGCATCCATT-CCAGAGCTGCCAAATGAATCAG
* ** *
1493933 TGATA-CCTGACAGCATGCCAGAGATACTTGTAGTCACTTAGCTTG
189 TGATACCCGGA-AGCACACCAGAGATACTTGTAATCACTTAGCTTG
1493978 CTCCCCAGCG
Statistics
Matches: 195, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
256 47 0.24
257 28 0.14
258 8 0.04
259 110 0.56
260 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (256 bp):
GAAACTCTATTAATGATTCTTGCATGGATGCATTATGACATCTCCCTTTACTTTTGCAGCATTGA
TTAGTCTCTGAGAAACACTATAAAAAACCATCATACGAAAGGGAAAGAATGATAAGTGATTGCTA
ATTGCTATGTAAATCAATGGCAAGCATGCATCCATTCCAGAGCTGCCAAATGAATCAGTGATACC
CGGAAGCACACCAGAGATACTTGTAATCACTTAGCTTGTTCACCATAATCGAGTGTTTTTA
Found at i:1494231 original size:2 final size:2
Alignment explanation
Indices: 1494226--1494253 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1494216 GAAAAAATTG
1494226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1494254 GAAATATTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1497541 original size:13 final size:13
Alignment explanation
Indices: 1497523--1497571 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
1497513 GATTATTAAA
1497523 AATATAATATTAT
1 AATATAATATTAT
1497536 AATATAATATAAATAT
1 AATATAATAT---TAT
*
1497552 GATATAATATTAT
1 AATATAATATTAT
*
1497565 GATATAA
1 AATATAA
1497572 AAATAATACG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 20 0.62
16 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (13 bp):
AATATAATATTAT
Found at i:1497549 original size:24 final size:24
Alignment explanation
Indices: 1497522--1497579 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
1497512 TGATTATTAA
*
1497522 AAATATAATATTATAATATAATAT
1 AAATATAATATAATAATATAATAT
* * *
1497546 AAATATGATATAATATTATGATAT
1 AAATATAATATAATAATATAATAT
*
1497570 AAAAATAATA
1 AAATATAATA
1497580 CGATTTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (24 bp):
AAATATAATATAATAATATAATAT
Found at i:1497556 original size:29 final size:29
Alignment explanation
Indices: 1497524--1497602 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
1497514 ATTATTAAAA
* *
1497524 ATATAATATTATAATAT-AATATAAATATG
1 ATATAATATTATAATATAAAAAT-AATACG
*
1497553 ATATAATATTATGATATAAAAATAATACG
1 ATATAATATTATAATATAAAAATAATACG
* *
1497582 ATTTAAAATTATAATAATAAA
1 ATATAATATTATAAT-ATAAA
1497603 TTTATATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 33 0.79
30 9 0.21
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (29 bp):
ATATAATATTATAATATAAAAATAATACG
Found at i:1497558 original size:16 final size:18
Alignment explanation
Indices: 1497523--1497561 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
1497513 GATTATTAAA
1497523 AATATAATATTATAATAT
1 AATATAATATTATAATAT
*
1497541 AATATAA-A-TATGATAT
1 AATATAATATTATAATAT
1497557 AATAT
1 AATAT
1497562 TATGATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 1 0.05
18 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AATATAATATTATAATAT
Found at i:1499563 original size:16 final size:17
Alignment explanation
Indices: 1499542--1499574 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1499532 AAAACATTGT
1499542 CTGTTGAAC-GAAAGTA
1 CTGTTGAACAGAAAGTA
1499558 CTGTTGAACAGAAAGTA
1 CTGTTGAACAGAAAGTA
1499575 AGGGCTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (17 bp):
CTGTTGAACAGAAAGTA
Found at i:1502619 original size:6 final size:6
Alignment explanation
Indices: 1502608--1502696 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
1502598 ATATAATAAA
* * **
1502608 AAATTT AAATTT -AATTT AAAATTT ATTATTCA AAATTT -AATCA AAATTT
1 AAATTT AAATTT AAATTT -AAATTT A-AATT-T AAATTT AAATTT AAATTT
* *
1502657 AATTTTT AAATTT AAATTT AATTTTT AAATTT AAATTT AA
1 AA-ATTT AAATTT AAATTT AA-ATTT AAATTT AAATTT AA
1502697 TTCAAGATAA
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
5 8 0.12
6 34 0.53
7 21 0.33
8 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:1502675 original size:19 final size:19
Alignment explanation
Indices: 1502651--1502698 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
1502641 AATTTAATCA
1502651 AAATTTAATTTTTAAATTT
1 AAATTTAATTTTTAAATTT
1502670 AAATTTAATTTTTAAATTT
1 AAATTTAATTTTTAAATTT
1502689 AAATTTAATT
1 AAATTTAATT
1502699 CAAGATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AAATTTAATTTTTAAATTT
Found at i:1502961 original size:11 final size:11
Alignment explanation
Indices: 1502945--1503007 Score: 67
Period size: 11 Copynumber: 5.8 Consensus size: 11
1502935 AAATTGCTCA
1502945 AATTTAAATTT
1 AATTTAAATTT
1502956 AATTT-AATATT
1 AATTTAAAT-TT
**
1502967 AA-TTAAATCG
1 AATTTAAATTT
1502977 AATTTAAATTT
1 AATTTAAATTT
* *
1502988 TATTTAAATTA
1 AATTTAAATTT
1502999 AATTTAAAT
1 AATTTAAAT
1503008 AATTTACAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
10 7 0.17
11 35 0.83
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:1503002 original size:22 final size:22
Alignment explanation
Indices: 1502946--1503008 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
1502936 AATTGCTCAA
*
1502946 ATTTAAATTTAATTT-AATATT
1 ATTTAAATTAAATTTAAATATT
* ** *
1502967 AATTAAATCGAATTTAAATTTT
1 ATTTAAATTAAATTTAAATATT
1502989 ATTTAAATTAAATTTAAATA
1 ATTTAAATTAAATTTAAATA
1503009 ATTTACAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 12 0.36
22 21 0.64
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTAAATTAAATTTAAATATT
Found at i:1508487 original size:3 final size:3
Alignment explanation
Indices: 1508479--1508512 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1508469 GTTGTAGTTG
* *
1508479 ACA ACA ACA ACA ACA ACA CCA ACA ATA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1508513 TAATGCTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.65, C:0.32, G:0.00, T:0.03
Consensus pattern (3 bp):
ACA
Found at i:1513261 original size:16 final size:17
Alignment explanation
Indices: 1513229--1513264 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1513219 TGGCAACTCG
1513229 CTTTCTTTCTGCTTTTT
1 CTTTCTTTCTGCTTTTT
*
1513246 CTTTCTTT-TTCTTTTT
1 CTTTCTTTCTGCTTTTT
1513262 CTT
1 CTT
1513265 GGATAGTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (17 bp):
CTTTCTTTCTGCTTTTT
Found at i:1513383 original size:2 final size:2
Alignment explanation
Indices: 1513372--1513411 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1513362 TGGTTTATTT
1513372 TA TA TA -A TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1513412 AAGCTTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1515759 original size:12 final size:12
Alignment explanation
Indices: 1515742--1515777 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1515732 TAGCATTGTT
1515742 TTGTTGCTGCTG
1 TTGTTGCTGCTG
1515754 TTGTTGCTGCTG
1 TTGTTGCTGCTG
* *
1515766 CTGCTGCTGCTG
1 TTGTTGCTGCTG
1515778 CTGCTGCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.22, G:0.33, T:0.44
Consensus pattern (12 bp):
TTGTTGCTGCTG
Found at i:1515764 original size:3 final size:3
Alignment explanation
Indices: 1515746--1515786 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
1515736 ATTGTTTTGT
* *
1515746 TGC TGC TGT TGT TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
1515787 ATGGAAGCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.27, G:0.34, T:0.39
Consensus pattern (3 bp):
TGC
Found at i:1525413 original size:23 final size:23
Alignment explanation
Indices: 1525380--1525438 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
1525370 AAGAGAGAAG
* *
1525380 GAAAAAGAAAATTTTGGATTTAAA-
1 GAAAAA-AAAAGTTT-GATATAAAT
1525404 GAAAAAAAAAGTTTGATATAAAT
1 GAAAAAAAAAGTTTGATATAAAT
1525427 GACAAAAAAAAG
1 GA-AAAAAAAAG
1525439 AAAAAAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 7 0.23
23 9 0.29
24 15 0.48
ACGTcount: A:0.61, C:0.02, G:0.15, T:0.22
Consensus pattern (23 bp):
GAAAAAAAAAGTTTGATATAAAT
Found at i:1530030 original size:2 final size:2
Alignment explanation
Indices: 1530023--1530052 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1530013 TTACTCTAGG
1530023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1530053 TCATCATCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1530221 original size:19 final size:20
Alignment explanation
Indices: 1530184--1530221 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1530174 CGAAATCAAA
**
1530184 ATTTTTATATCGTTTTAAAT
1 ATTTTTATATCGTGATAAAT
1530204 ATTTTTA-ATCGTGATAAA
1 ATTTTTATATCGTGATAAA
1530222 GATTGACACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
ATTTTTATATCGTGATAAAT
Found at i:1531361 original size:19 final size:20
Alignment explanation
Indices: 1531322--1531365 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
1531312 CATAACCGAA
* *
1531322 TTATATATTTTTCTTAATTT
1 TTATATATATTTCTAAATTT
1531342 TTATATATATTT-TAAATTT
1 TTATATATATTTCTAAATTT
1531361 TTATA
1 TTATA
1531366 AAGTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATATATATTTCTAAATTT
Found at i:1533826 original size:13 final size:13
Alignment explanation
Indices: 1533808--1533839 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1533798 TTTGATTTCG
1533808 ATTTAATTTTTTA
1 ATTTAATTTTTTA
1533821 ATTTAATTTTTTA
1 ATTTAATTTTTTA
1533834 ATTTAA
1 ATTTAA
1533840 AATCTAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTAATTTTTTA
Found at i:1542031 original size:61 final size:61
Alignment explanation
Indices: 1541936--1542058 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
1541926 TGTGCTAGAA
*
1541936 AAGCCAAATAATGTGACGAGGGAATATGCTGTTGTTTTGATCCCGTTGATATTTTTGCTTT
1 AAGCCAAATAATGTGACGAGGGAATATGCTGTTGTTTTGATACCGTTGATATTTTTGCTTT
* *
1541997 AAGCCATATAATGTGATGAGGGAATATGCTGTTGTTTTGATACCGTTGATATTTTTGCTTT
1 AAGCCAAATAATGTGACGAGGGAATATGCTGTTGTTTTGATACCGTTGATATTTTTGCTTT
1542058 A
1 A
1542059 CCATATTATA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (61 bp):
AAGCCAAATAATGTGACGAGGGAATATGCTGTTGTTTTGATACCGTTGATATTTTTGCTTT
Found at i:1542308 original size:116 final size:116
Alignment explanation
Indices: 1542104--1542338 Score: 461
Period size: 116 Copynumber: 2.0 Consensus size: 116
1542094 GTATCTCACG
*
1542104 TAAGGATTCGGCATTGTGTTTATCCAAGAACTGACTTGGCCTGACTCCAGTGGATGAGCCACACT
1 TAAGGATTCGGCATTGTGTTTATCCAAGAACTGACTGGGCCTGACTCCAGTGGATGAGCCACACT
1542169 TATTGACCAAACGACAAATGACTGCCCCCTGTTGAGTCTCTATCATATGTT
66 TATTGACCAAACGACAAATGACTGCCCCCTGTTGAGTCTCTATCATATGTT
1542220 TAAGGATTCGGCATTGTGTTTATCCAAGAACTGACTGGGCCTGACTCCAGTGGATGAGCCACACT
1 TAAGGATTCGGCATTGTGTTTATCCAAGAACTGACTGGGCCTGACTCCAGTGGATGAGCCACACT
1542285 TATTGACCAAACGACAAATGACTGCCCCCTGTTGAGTCTCTATCATATGTT
66 TATTGACCAAACGACAAATGACTGCCCCCTGTTGAGTCTCTATCATATGTT
1542336 TAA
1 TAA
1542339 AGTATTCATC
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (116 bp):
TAAGGATTCGGCATTGTGTTTATCCAAGAACTGACTGGGCCTGACTCCAGTGGATGAGCCACACT
TATTGACCAAACGACAAATGACTGCCCCCTGTTGAGTCTCTATCATATGTT
Found at i:1547527 original size:22 final size:21
Alignment explanation
Indices: 1547495--1547535 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
1547485 TATCACTTTA
1547495 AATTTAAAATTTA-ATTTAATT
1 AATTTAAAA-TTACATTTAATT
1547516 AATTTAATAATTACATTTAA
1 AATTTAA-AATTACATTTAA
1547536 GAGATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTTAAAATTACATTTAATT
Found at i:1548237 original size:21 final size:22
Alignment explanation
Indices: 1548201--1548242 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1548191 CACTGAGTAA
1548201 ATATTCCTGAATCGACCTTGGC
1 ATATTCCTGAATCGACCTTGGC
*
1548223 ATATTCCT-TATCGACCTTGG
1 ATATTCCTGAATCGACCTTGG
1548243 ATACATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (22 bp):
ATATTCCTGAATCGACCTTGGC
Found at i:1554220 original size:7 final size:7
Alignment explanation
Indices: 1554208--1554260 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
1554198 AATTTTACTA
1554208 ATATTTT
1 ATATTTT
1554215 ATATTTT
1 ATATTTT
1554222 ATATTATTT
1 ATA-T-TTT
*
1554231 TTATTTT
1 ATATTTT
1554238 -TATTTT
1 ATATTTT
1554244 -TATTTT
1 ATATTTT
*
1554250 ATATTAT
1 ATATTTT
1554257 ATAT
1 ATAT
1554261 ATTCCTTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 12 0.29
7 22 0.54
8 2 0.05
9 5 0.12
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATATTTT
Found at i:1554222 original size:18 final size:16
Alignment explanation
Indices: 1554199--1554252 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 16
1554189 GGATAGCCCA
1554199 ATTTTACTAATATTTTAT
1 ATTTTA-TAATATTTT-T
*
1554217 ATTTTATATTATTTTT
1 ATTTTATAATATTTTT
1554233 A-TTT-T--TATTTTT
1 ATTTTATAATATTTTT
1554245 ATTTTATA
1 ATTTTATA
1554253 TTATATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
12 8 0.25
13 3 0.09
14 2 0.06
15 3 0.09
16 2 0.06
17 8 0.25
18 6 0.19
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTATAATATTTTT
Found at i:1554236 original size:6 final size:6
Alignment explanation
Indices: 1554211--1554254 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
1554201 TTTACTAATA
*
1554211 TTTTAT ATTTTA- TATTAT TTTTAT TTTTAT TTTTAT TTTATAT T
1 TTTTAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT T
1554255 ATATATATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 4 0.12
6 20 0.61
7 9 0.27
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:1554263 original size:28 final size:29
Alignment explanation
Indices: 1554209--1554332 Score: 85
Period size: 28 Copynumber: 4.1 Consensus size: 29
1554199 ATTTTACTAA
* *
1554209 TATTTTATATTTTATATTATTTTTATTTT
1 TATTTTATATTTTATATTATATATATTTT
1554238 TATTTT-TATTTTATATTATATATATTCCTTT
1 TATTTTATATTTTATATTATATATA-T--TTT
* * * *
1554269 GTATCTTATGTATT-TATTATTTAT-TTATT
1 -TATTTTATATTTTATATTATATATATT-TT
*
1554298 TATTATTACTA-TTTATTAATATATATATTTT
1 TATT-TTA-TATTTTA-TATTATATATATTTT
1554329 TATT
1 TATT
1554333 ATTTTTTTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
28 20 0.27
29 14 0.19
30 2 0.03
31 17 0.23
32 16 0.22
33 4 0.05
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (29 bp):
TATTTTATATTTTATATTATATATATTTT
Found at i:1554292 original size:4 final size:4
Alignment explanation
Indices: 1554274--1554532 Score: 54
Period size: 4 Copynumber: 63.5 Consensus size: 4
1554264 CCTTTGTATC
* * *
1554274 TTAT GTAT TTA- TTAT TTAT TTAT TTA- TTAT TACTAT TTAT TAAT ATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT TTAT TTAT
* * * * * * * *
1554322 ATAT TTTT ATTAT TTTT TTCT TT-T CTT-T TTTT TTCTT TTCT GTTAA
1 TTAT TTAT -TTAT TTAT TTAT TTAT -TTAT TTAT TT-AT TTAT -TTAT
* * * * *
1554368 T-AT TTAT ATATT TTTT TTAT TTAT CTAG TTAT ATAT TTAT ATTAT TTAT
1 TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT
* * * * * *
1554417 CTAT TTAT ATAT TATAAT TTAT CTA- TTA- TTAT TT-T TAAT TTAT CTGT
1 TTAT TTAT TTAT T-T-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * * *
1554464 TAAT TT-T TTAGT TTAT CTGAT TATTT TTAT TTAA TTAT CTAT TAATAT
1 TTAT TTAT TTA-T TTAT -TTAT T-TAT TTAT TTAT TTAT TTAT T--TAT
1554512 TT-T TTAT TTGAT TT-T TTAT TT
1 TTAT TTAT TT-AT TTAT TTAT TT
1554533 TTTTGATTTT
Statistics
Matches: 184, Mismatches: 46, Indels: 50
0.66 0.16 0.18
Matches are distributed among these distances:
3 27 0.15
4 116 0.63
5 30 0.16
6 11 0.06
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (4 bp):
TTAT
Found at i:1554385 original size:31 final size:34
Alignment explanation
Indices: 1554348--1554465 Score: 108
Period size: 33 Copynumber: 3.6 Consensus size: 34
1554338 TTTCTTTTCT
*
1554348 TTTTTTTTCTTT-TCT-GTTA-ATATTTATA-TA
1 TTTTTTTTATTTATCTAGTTATATATTTATATTA
1554378 TTTTTTTTATTTATCTAGTTATATATTTATATTA
1 TTTTTTTTATTTATCTAGTTATATATTTATATTA
* * *
1554412 -TTTATCTATTTATATA-TTATA-ATTTATCTATTA
1 TTTTTTTTATTTATCTAGTTATATATTTA--TATTA
*
1554445 TTATTTTTAATTTATCT-GTTA
1 TT-TTTTTTATTTATCTAGTTA
1554466 ATTTTTTAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
30 11 0.15
31 8 0.11
32 9 0.13
33 27 0.38
34 3 0.04
35 13 0.18
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (34 bp):
TTTTTTTTATTTATCTAGTTATATATTTATATTA
Found at i:1554399 original size:25 final size:25
Alignment explanation
Indices: 1554371--1554465 Score: 98
Period size: 25 Copynumber: 4.1 Consensus size: 25
1554361 CTGTTAATAT
* *
1554371 TTATATATTTTTTTTATTTATCTAG
1 TTATATATTTATATTATTTATCTAG
*
1554396 TTATATATTTATATTATTTATCTAT
1 TTATATATTTATATTATTTATCTAG
1554421 TTATATA-TTATA--ATTTATCTA-
1 TTATATATTTATATTATTTATCTAG
*
1554442 TTAT-TATTT-T-TAATTTATCT-G
1 TTATATATTTATATTATTTATCTAG
1554463 TTA
1 TTA
1554466 ATTTTTTAGT
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
20 3 0.05
21 17 0.27
22 9 0.14
24 5 0.08
25 29 0.46
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (25 bp):
TTATATATTTATATTATTTATCTAG
Found at i:1554455 original size:21 final size:21
Alignment explanation
Indices: 1554376--1554520 Score: 109
Period size: 21 Copynumber: 6.7 Consensus size: 21
1554366 AATATTTATA
*
1554376 TATT-TTTTTTATTTATCTAGT
1 TATTATTTTTAATTTATCTA-T
*
1554397 TATATATTTATATTATTTATCTAT
1 TAT-TATTT-T-TAATTTATCTAT
*
1554421 T-TATATATTATAATTTATCTAT
1 TAT-TAT-TTTTAATTTATCTAT
*
1554443 TATTATTTTTAATTTATCTGT
1 TATTATTTTTAATTTATCTAT
* *
1554464 TAAT-TTTTTAGTTTATCTGAT
1 TATTATTTTTAATTTATCT-AT
*
1554485 TATTTTTATTTAA-TTATCTAT
1 TATTATT-TTTAATTTATCTAT
* *
1554506 TAATATTTTTTATTT
1 TATTATTTTTAATTT
1554521 GATTTTTTAT
Statistics
Matches: 102, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
20 17 0.17
21 32 0.31
22 24 0.24
23 13 0.13
24 5 0.05
25 11 0.11
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (21 bp):
TATTATTTTTAATTTATCTAT
Found at i:1554502 original size:42 final size:42
Alignment explanation
Indices: 1554381--1554515 Score: 132
Period size: 43 Copynumber: 3.1 Consensus size: 42
1554371 TTATATATTT
* *
1554381 TTTTTA-TTTATCTAGTTATATATTTATATTATTTATCTATTTATA
1 TTTTTAGTTTATCTA-TTAT-TATTT-T-TAATTTATCTATTAATA
* * *
1554426 TATTATAATTTATCTATTATTATTTTTAATTTATCTGTTAAT-
1 T-TTTTAGTTTATCTATTATTATTTTTAATTTATCTATTAATA
*
1554468 TTTTTAGTTTATCTGATTATTTTTATTTAA-TTATCTATTAATA
1 TTTTTAGTTTATCT-ATTATTATT-TTTAATTTATCTATTAATA
1554511 TTTTT
1 TTTTT
1554516 TATTTGATTT
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
41 11 0.14
42 20 0.26
43 23 0.30
44 1 0.01
45 6 0.08
46 8 0.10
47 8 0.10
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (42 bp):
TTTTTAGTTTATCTATTATTATTTTTAATTTATCTATTAATA
Found at i:1554539 original size:16 final size:17
Alignment explanation
Indices: 1554513--1554544 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1554503 TATTAATATT
1554513 TTTTATTTGATTTTTTA
1 TTTTATTTGATTTTTTA
1554530 TTTT-TTTGATTTTTT
1 TTTTATTTGATTTTTT
1554545 TTTCGTCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (17 bp):
TTTTATTTGATTTTTTA
Found at i:1555443 original size:6 final size:6
Alignment explanation
Indices: 1555410--1555488 Score: 69
Period size: 6 Copynumber: 13.3 Consensus size: 6
1555400 AATAGATCTA
*
1555410 TTTAAT TTT-TT TTTATT TTT-TT CCTTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT --TTTATT TTTATT TTTATT TTTATT
*
1555458 TTCA-T TTTA-T TTTATT TCATTA-T TTTATT TT
1 TTTATT TTTATT TTTATT T--TTATT TTTATT TT
1555489 CTTTAAATAA
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
5 18 0.29
6 34 0.55
7 5 0.08
8 5 0.08
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:1555469 original size:5 final size:5
Alignment explanation
Indices: 1555408--1555488 Score: 53
Period size: 5 Copynumber: 16.2 Consensus size: 5
1555398 AGAATAGATC
* * **
1555408 TATTT AATTT TTTTT TA-TT T-TTT TCCTT TATTTT TATTTT TATTTT
1 TATTT TATTT TATTT TATTT TATTT TATTT TA-TTT TA-TTT TA-TTT
*
1555454 TATTT TCATTT TATTT TATTT CA--T TATTT TATTT T
1 TATTT T-ATTT TATTT TATTT TATTT TATTT TATTT T
1555489 CTTTAAATAA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
3 2 0.03
4 6 0.10
5 32 0.52
6 21 0.34
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:1557738 original size:26 final size:27
Alignment explanation
Indices: 1557682--1557744 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
1557672 AATTTTTATT
*
1557682 ATAATTTTTTTCAATTATAATAATAATA
1 ATAATTTTTTTCAATCATAAT-ATAATA
*
1557710 ATAAATTTTTTTCAATCATACT-TAA-A
1 AT-AATTTTTTTCAATCATAATATAATA
1557736 ATAATTTTT
1 ATAATTTTT
1557745 GTTATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 7 0.22
26 3 0.09
27 3 0.09
28 2 0.06
29 17 0.53
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (27 bp):
ATAATTTTTTTCAATCATAATATAATA
Found at i:1561860 original size:20 final size:20
Alignment explanation
Indices: 1561828--1561868 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
1561818 ACTAAGACTC
1561828 AAGAAGAAACTCAATTTGAT
1 AAGAAGAAACTCAATTTGAT
1561848 AAGAA-AAAGCTCAATTTGAT
1 AAGAAGAAA-CTCAATTTGAT
1561868 A
1 A
1561869 TACATGAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (20 bp):
AAGAAGAAACTCAATTTGAT
Found at i:1570180 original size:39 final size:39
Alignment explanation
Indices: 1570076--1570487 Score: 340
Period size: 40 Copynumber: 10.4 Consensus size: 39
1570066 CCTCTCAGCA
* * * * *
1570076 TTTTTGGATTTAAAATTTGTTGCCTCTGGTCAGAGGAGC
1 TTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* * **
1570115 -CTTTCAATATCTAAAGTTTGTCACCTTTGGTTAAAGGAGC
1 TTTTTGAAT-T-TAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* * * *
1570155 TTTTTGAATTTAAAGTTCGTTACCTTTGGTCAGAGGAGC
1 TTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* ** * * *
1570194 CTTTCAATATTTAAAGTTTATCGCCTTTGGTTAAATGAGC
1 TTTTTGA-ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* * * * *
1570234 TTTTTGAATTTAAAGTTAGTTGCCTCTAGTCAGAGGAGC
1 TTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* **
1570273 CTTTCAATATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
1 TTTTTGA-ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* * * *
1570313 TTTTTGAATTTAAAGTTAGTTGCTTTTGGTCAAAAGAGC
1 TTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* * * **
1570352 CTTTTAATATTTAAAGTTTGTCGCCTTTGGTTAAAAAAGC
1 TTTTTGA-ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* * * * * *
1570392 TTTTTGGATTTAAAGTTTGTTACCTCTGGTCATAGAAGC
1 TTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* ** * *
1570431 CTTTCAACATTTAAAGTTTATTGCCTTTAGTTAAAGGAGC
1 TTTTTGA-ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
1570471 TTTTTGAATTTAAAGTT
1 TTTTTGAATTTAAAGTT
1570488 ATTGAGTCTC
Statistics
Matches: 285, Mismatches: 81, Indels: 14
0.75 0.21 0.04
Matches are distributed among these distances:
38 5 0.02
39 130 0.46
40 144 0.51
41 6 0.02
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (39 bp):
TTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
Found at i:1570209 original size:79 final size:79
Alignment explanation
Indices: 1570076--1570488 Score: 574
Period size: 79 Copynumber: 5.2 Consensus size: 79
1570066 CCTCTCAGCA
* * * * *
1570076 TTTTTGGATTTAAAATTTGTTGCCTCTGGTCAGAGGAGCCTTTCAATATCTAAAGTTTGTCACCT
1 TTTTTGAATTTAAAGTTAGTTGCCTCTGGTCAGAGGAGCCTTTCAATATTTAAAGTTTGTCGCCT
1570141 TTGGTTAAAGGAGC
66 TTGGTTAAAGGAGC
* * * *
1570155 TTTTTGAATTTAAAGTTCGTTACCTTTGGTCAGAGGAGCCTTTCAATATTTAAAGTTTATCGCCT
1 TTTTTGAATTTAAAGTTAGTTGCCTCTGGTCAGAGGAGCCTTTCAATATTTAAAGTTTGTCGCCT
*
1570220 TTGGTTAAATGAGC
66 TTGGTTAAAGGAGC
* *
1570234 TTTTTGAATTTAAAGTTAGTTGCCTCTAGTCAGAGGAGCCTTTCAATATTTAAAGTTTGTTGCCT
1 TTTTTGAATTTAAAGTTAGTTGCCTCTGGTCAGAGGAGCCTTTCAATATTTAAAGTTTGTCGCCT
1570299 TTGGTTAAAGGAGC
66 TTGGTTAAAGGAGC
* * * * *
1570313 TTTTTGAATTTAAAGTTAGTTGCTTTTGGTCAAAAGAGCCTTTTAATATTTAAAGTTTGTCGCCT
1 TTTTTGAATTTAAAGTTAGTTGCCTCTGGTCAGAGGAGCCTTTCAATATTTAAAGTTTGTCGCCT
**
1570378 TTGGTTAAAAAAGC
66 TTGGTTAAAGGAGC
* * * * * * * *
1570392 TTTTTGGATTTAAAGTTTGTTACCTCTGGTCATAGAAGCCTTTCAACATTTAAAGTTTATTGCCT
1 TTTTTGAATTTAAAGTTAGTTGCCTCTGGTCAGAGGAGCCTTTCAATATTTAAAGTTTGTCGCCT
*
1570457 TTAGTTAAAGGAGC
66 TTGGTTAAAGGAGC
1570471 TTTTTGAATTTAAAGTTA
1 TTTTTGAATTTAAAGTTA
1570489 TTGAGTCTCT
Statistics
Matches: 292, Mismatches: 42, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 292 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (79 bp):
TTTTTGAATTTAAAGTTAGTTGCCTCTGGTCAGAGGAGCCTTTCAATATTTAAAGTTTGTCGCCT
TTGGTTAAAGGAGC
Found at i:1570547 original size:48 final size:48
Alignment explanation
Indices: 1570479--1571128 Score: 628
Period size: 48 Copynumber: 13.4 Consensus size: 48
1570469 GCTTTTTGAA
* * * *
1570479 TTTAAAGTTATTGAGTCTCTGCTGAGATGAGCTTTTTTC-AGATAAATT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCAAGATAAAAT
* * *
1570527 TTTAAAGTTATTGAGCCTCTGCTGAGAGAAGTTTTTTCAAGATAAAAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAAAT
* * * ** * * *
1570575 TGTAAAGTTGTTGAGCCTTTGCAGAGATAAGCTTTTCCAA-ATGAGATT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAT-AAAAT
*
1570623 TTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCATTTTTCAAGATAAAAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCAAGATAAAAT
* * * *
1570672 TTTAAAGTTGTTGAGTCACTACTAAGAGGAGCTTTTTCAAGATAAAAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAAAT
* * * * *
1570720 TTTAAAGTTGTTGAGCATCTACTGAGAGGAGCTTTTCCAA-ATGAGATT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAT-AAAAT
* * * * * * *
1570768 TTTAAAGTTGTTAAGCTTCTGTTGAGAGAAGCTTTTCCAA-ATGAGAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAAAT
*
1570815 TTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCATTTTTCAAGATAAAAAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCAAGAT-AAAAT
* ** *
1570865 TTTAAAGTTGTGGAGCCTCTATTGTGAGGAGCTTTTTCAAGATAAAAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAAAT
* * * * * * *
1570913 TTTAAAGTTATTGAGCTTCTGTTGAGAGAAACTTTTTCAA-ATGAGATT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAT-AAAAT
* * * *
1570961 TTTAAAGCTGTTAAGCCTCTGCTGAGAAGATCATTTTTCAAGATAAAAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCAAGATAAAAT
* * **
1571010 TTTAAAGTTGTTGAGCATCTACTGAGATAAGCTTTTTCAAGATAAAAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAAAT
* * * *
1571058 TTTAAAATTGTTGAGTCTCTACTGAGAGGAGCCTTTTTC-AGATTTTAAAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGA--TAAAAT
*
1571108 TTTCAATAGTTGTCGAGCCTC
1 TTT-AA-AGTTGTTGAGCCTC
1571129 GAGTGAGAAG
Statistics
Matches: 498, Mismatches: 88, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
47 40 0.08
48 308 0.62
49 93 0.19
50 44 0.09
51 2 0.00
52 11 0.02
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (48 bp):
TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAAAT
Found at i:1570753 original size:145 final size:144
Alignment explanation
Indices: 1570479--1571147 Score: 648
Period size: 145 Copynumber: 4.6 Consensus size: 144
1570469 GCTTTTTGAA
* * * * * *
1570479 TTTAAAGTTATTGAGTCTCTGCTGAGATGAGCTTTTTTCAGATAAATTTTTAAAGTTATTGAGCC
1 TTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCATTTTTCAAATAAAATTTTAAAGTTGTTGAGCC
* * * * * * * * *
1570544 TCTGCTGAGAGAAG-TTTTTTCAAGATAAAATTGTAAAGTTGTTGAGCCTTTGCAGAGATAAGCT
65 TCTACTGAGAGGAGCATTTTTCAAGATAAAATTTTAAAGTTGTTGAGCATCTACTGAGAGAAGCT
* *
1570608 TTTCCAA-ATGAGATT
130 TTTCCAAGAT-AAAAT
*
1570623 TTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCATTTTTCAAGATAAAATTTTAAAGTTGTTGAGT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCATTTTTCAA-ATAAAATTTTAAAGTTGTTGAGC
* * *
1570688 CACTACTAAGAGGAGC-TTTTTCAAGATAAAATTTTAAAGTTGTTGAGCATCTACTGAGAGGAGC
64 CTCTACTGAGAGGAGCATTTTTCAAGATAAAATTTTAAAGTTGTTGAGCATCTACTGAGAGAAGC
* *
1570752 TTTTCCAA-ATGAGATT
129 TTTTCCAAGAT-AAAAT
* * * * * *
1570768 TTTAAAGTTGTTAAGCTTCTGTTGAGAGAAGC-TTTTCCAAATGAGATTTTAAAGTTGTTGAGCC
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAG-AGCATTTTTCAAATAAAATTTTAAAGTTGTTGAGCC
* * * * *
1570832 TCTACTGAGAGGAGCATTTTTCAAGATAAAAATTTTAAAGTTGTGGAGCCTCTATTGTGAGGAGC
65 TCTACTGAGAGGAGCATTTTTCAAGAT-AAAATTTTAAAGTTGTTGAGCATCTACTGAGAGAAGC
*
1570897 TTTTTCAAGATAAAAT
129 TTTTCCAAGATAAAAT
* * * * * * * *
1570913 TTTAAAGTTATTGAGCTTCTGTTGAGAGA-AACTTTTTCAAATGAGATTTTTAAAGCTGTTAAGC
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAGAGCA-TTTTTCAAAT-AAAATTTTAAAGTTGTTGAGC
* * * *
1570977 CTCTGCTGAGAAGATCATTTTTCAAGATAAAATTTTAAAGTTGTTGAGCATCTACTGAGATAAGC
64 CTCTACTGAGAGGAGCATTTTTCAAGATAAAATTTTAAAGTTGTTGAGCATCTACTGAGAGAAGC
*
1571042 TTTTTCAAGATAAAAT
129 TTTTCCAAGATAAAAT
* * * * * * *
1571058 TTTAAAATTGTTGAGTCTCTACTGAGAGGAGCCTTTTTCAGATTTTAAATTTTCAATAGTTGTCG
1 TTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCATTTTTCA-A-ATAAAATTTT-AA-AGTTGTTG
* * *
1571123 AGCCTCGAGTGAGAAGAGCATTTTT
61 AGCCTCTACTGAGAGGAGCATTTTT
1571148 GTTTTGATGA
Statistics
Matches: 438, Mismatches: 72, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
143 34 0.08
144 57 0.13
145 261 0.60
146 51 0.12
147 6 0.01
148 3 0.01
149 26 0.06
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (144 bp):
TTTAAAGTTGTTGAGCCTCTGCTGAGAGAGCATTTTTCAAATAAAATTTTAAAGTTGTTGAGCCT
CTACTGAGAGGAGCATTTTTCAAGATAAAATTTTAAAGTTGTTGAGCATCTACTGAGAGAAGCTT
TTCCAAGATAAAAT
Found at i:1570808 original size:193 final size:191
Alignment explanation
Indices: 1570479--1571097 Score: 787
Period size: 193 Copynumber: 3.2 Consensus size: 191
1570469 GCTTTTTGAA
* * * *
1570479 TTTAAAGTTATTGAGTCTCTGCTGAGATGAGCTTTTTTC-AGATAAATTTTTAAAGTTATTGAGC
1 TTTAAAGTTGTTGAGTCTCTACTGAGAGGAGC-TTTTTCAAGATAAAATTTTAAAGTTATTGAGC
* * * * * * *
1570543 CTCTGCTGAGAGAAGTTTTTTCAAGAT-AAAATTGTAAAGTTGTTGAGCCTT-TGCAGAGATAAG
65 ATCTGCTGAGAGAAGCTTTTTCAA-ATGAGATTTTTAAAGTTGTTAAG-CTTCTGCTGAGA-AAG
*
1570606 CTTTTCCAAATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCATTTTTCAAGATAAAA
127 CTTTTCCAAATGAGA-TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCATTTTTCAAGATAAAA
1570671 T
191 T
* * *
1570672 TTTAAAGTTGTTGAGTCACTACTAAGAGGAGCTTTTTCAAGATAAAATTTTAAAGTTGTTGAGCA
1 TTTAAAGTTGTTGAGTCTCTACTGAGAGGAGCTTTTTCAAGATAAAATTTTAAAGTTATTGAGCA
* * * *
1570737 TCTACTGAGAGGAGCTTTTCCAAATGAGATTTTTAAAGTTGTTAAGCTTCTGTTGAGAGAAGCTT
66 TCTGCTGAGAGAAGCTTTTTCAAATGAGATTTTTAAAGTTGTTAAGCTTCTGCTGAGA-AAGCTT
*
1570802 TTCCAAATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCATTTTTCAAGATAAAAAT
130 TTCCAAATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCATTTTTCAAGAT-AAAAT
* * * * *
1570865 TTTAAAGTTGTGGAGCCTCTATTGTGAGGAGCTTTTTCAAGATAAAATTTTAAAGTTATTGAGCT
1 TTTAAAGTTGTTGAGTCTCTACTGAGAGGAGCTTTTTCAAGATAAAATTTTAAAGTTATTGAGCA
* * * * *
1570930 TCTGTTGAGAGAAACTTTTTCAAATGAGATTTTTAAAGCTGTTAAGCCTCTGCTGAGAAGATCAT
66 TCTGCTGAGAGAAGCTTTTTCAAATGAGATTTTTAAAGTTGTTAAGCTTCTGCTGAGAA-AGC-T
* * * * *
1570995 TTTTCAAGATAAAATTTTAAAGTTGTTGAGCATCTACTGAGATAAGC-TTTTTCAAGATAAAAT
129 TTTCCAA-ATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCATTTTTCAAGATAAAAT
*
1571058 TTTAAAATTGTTGAGTCTCTACTGAGAGGAGCCTTTTTCA
1 TTTAAAGTTGTTGAGTCTCTACTGAGAGGAG-CTTTTTCA
1571098 GATTTTAAAT
Statistics
Matches: 369, Mismatches: 49, Indels: 15
0.85 0.11 0.03
Matches are distributed among these distances:
192 55 0.15
193 254 0.69
194 26 0.07
195 34 0.09
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (191 bp):
TTTAAAGTTGTTGAGTCTCTACTGAGAGGAGCTTTTTCAAGATAAAATTTTAAAGTTATTGAGCA
TCTGCTGAGAGAAGCTTTTTCAAATGAGATTTTTAAAGTTGTTAAGCTTCTGCTGAGAAAGCTTT
TCCAAATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCATTTTTCAAGATAAAAT
Found at i:1571500 original size:7 final size:7
Alignment explanation
Indices: 1571488--1571588 Score: 71
Period size: 7 Copynumber: 13.6 Consensus size: 7
1571478 AAATTAAACA
1571488 AAAATAC
1 AAAATAC
1571495 AAAATAC
1 AAAATAC
*
1571502 AAAAAATAA
1 --AAAATAC
1571511 AAAATACC
1 AAAATA-C
*
1571519 AAAGCTAC
1 AAA-ATAC
1571527 AAAATAC
1 AAAATAC
1571534 AAAAAAATACC
1 ---AAAATA-C
1571545 AAAATAC
1 AAAATAC
1571552 AAAATAC
1 AAAATAC
* *
1571559 --TATAA
1 AAAATAC
1571564 AAAATAC
1 AAAATAC
*
1571571 AAAATAT
1 AAAATAC
1571578 AAAATAC
1 AAAATAC
1571585 AAAA
1 AAAA
1571589 AAAAACCAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
5 3 0.04
7 43 0.58
8 13 0.18
9 8 0.11
10 6 0.08
11 1 0.01
ACGTcount: A:0.71, C:0.13, G:0.01, T:0.15
Consensus pattern (7 bp):
AAAATAC
Found at i:1571508 original size:16 final size:16
Alignment explanation
Indices: 1571487--1571590 Score: 95
Period size: 16 Copynumber: 6.3 Consensus size: 16
1571477 TAAATTAAAC
1571487 AAAAATACAAAATACA
1 AAAAATACAAAATACA
* *
1571503 AAAAATAAAAAATACC
1 AAAAATACAAAATACA
**
1571519 AAAGCTACAAAATACAA
1 AAAAATACAAAATAC-A
1571536 AAAAATACCAAAATACA
1 AAAAATA-CAAAATACA
*
1571553 AAATACTATAAAAAATAC-
1 AAA-A--ATACAAAATACA
*
1571571 -AAAATATAAAATACA
1 AAAAATACAAAATACA
1571586 AAAAA
1 AAAAA
1571591 AAACCAAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 14
0.75 0.11 0.15
Matches are distributed among these distances:
14 10 0.14
16 31 0.44
17 11 0.15
18 9 0.13
19 7 0.10
20 3 0.04
ACGTcount: A:0.72, C:0.12, G:0.01, T:0.14
Consensus pattern (16 bp):
AAAAATACAAAATACA
Found at i:1571600 original size:26 final size:25
Alignment explanation
Indices: 1571487--1571599 Score: 135
Period size: 26 Copynumber: 4.5 Consensus size: 25
1571477 TAAATTAAAC
1571487 AAAAATA-CAAAATACAAAA-A-ATA
1 AAAAATACCAAAATACAAAATACA-A
*
1571510 AAAAATACCAAAGCTACAAAATACAA
1 AAAAATACCAAA-ATACAAAATACAA
1571536 AAAAATACCAAAATACAAAATACTATA
1 AAAAATACCAAAATACAAAATAC-A-A
*
1571563 AAAAATA-CAAAATATAAAATACAA
1 AAAAATACCAAAATACAAAATACAA
*
1571587 AAAAAAACCAAAA
1 AAAAATACCAAAA
1571600 AAAAGGAAGG
Statistics
Matches: 79, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.09
24 11 0.14
25 23 0.29
26 29 0.37
27 9 0.11
ACGTcount: A:0.73, C:0.13, G:0.01, T:0.13
Consensus pattern (25 bp):
AAAAATACCAAAATACAAAATACAA
Found at i:1572716 original size:14 final size:14
Alignment explanation
Indices: 1572697--1572724 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1572687 TAATAATAAT
1572697 TAATAAAATATATA
1 TAATAAAATATATA
1572711 TAATAAAATATATA
1 TAATAAAATATATA
1572725 GTAAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATAAAATATATA
Found at i:1580442 original size:15 final size:14
Alignment explanation
Indices: 1580424--1580453 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1580414 AAATTTACTA
1580424 TCTATTTTTTTATTT
1 TCTATTTTTTT-TTT
1580439 TCTATTTTTTTTTT
1 TCTATTTTTTTTTT
1580453 T
1 T
1580454 GGTTTTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (14 bp):
TCTATTTTTTTTTT
Found at i:1580675 original size:16 final size:16
Alignment explanation
Indices: 1580654--1580686 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1580644 CAGTGAGAGT
1580654 TTTCTGCAAAGTTTGA
1 TTTCTGCAAAGTTTGA
*
1580670 TTTCTGCAAATTTTGA
1 TTTCTGCAAAGTTTGA
1580686 T
1 T
1580687 ATGGTAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.48
Consensus pattern (16 bp):
TTTCTGCAAAGTTTGA
Found at i:1581858 original size:18 final size:18
Alignment explanation
Indices: 1581831--1581865 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1581821 AATTAATTAA
1581831 TTTTTATTGTGATTATTG
1 TTTTTATTGTGATTATTG
* *
1581849 TTTTTTTTGTTATTATT
1 TTTTTATTGTGATTATT
1581866 TACAATTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.74
Consensus pattern (18 bp):
TTTTTATTGTGATTATTG
Found at i:1581888 original size:14 final size:14
Alignment explanation
Indices: 1581871--1581897 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1581861 TTATTTACAA
1581871 TTTATTATTATTTT
1 TTTATTATTATTTT
1581885 TTTATTATTATTT
1 TTTATTATTATTT
1581898 ATAAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTATTATTTT
Found at i:1582268 original size:11 final size:12
Alignment explanation
Indices: 1582254--1582283 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
1582244 TTTATTTATC
1582254 TTTTTTATAAAT
1 TTTTTTATAAAT
1582266 TTTTTTAT-AAT
1 TTTTTTATAAAT
1582277 TTTTTTA
1 TTTTTTA
1582284 CCCAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTTATAAAT
Found at i:1583504 original size:20 final size:18
Alignment explanation
Indices: 1583485--1583525 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
1583475 ATTAATTAAT
1583485 TTATAAATAATAATAATAA
1 TTATAAATAA-AATAATAA
*
1583504 -TATAAATAAAATTATAA
1 TTATAAATAAAATAATAA
1583521 -TATAA
1 TTATAA
1583526 TCAAACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTATAAATAAAATAATAA
Found at i:1583820 original size:40 final size:40
Alignment explanation
Indices: 1583684--1583954 Score: 214
Period size: 40 Copynumber: 6.8 Consensus size: 40
1583674 TTTGAAAGGT
* *
1583684 TCCTCTAAAC-AGAGGCTATGAAACTTTAAATGTTA-AAAGGC
1 TCCTCT-AACTAGAGGCAATGAAACTTTAAAT-TCATAAA-GC
* * ** *
1583725 TCTTCTAACAAGAGATAATG-AACTTTAAATTCA-AAATGT
1 TCCTCTAACTAGAGGCAATGAAACTTTAAATTCATAAA-GC
* * * *
1583764 TTCTCTAACAAAAGGCAACGAAACTTTAAATTCATAAAGC
1 TCCTCTAACTAGAGGCAATGAAACTTTAAATTCATAAAGC
* * *
1583804 TCCTTTAATTAGAGGCAATGAAATTTTAAATGT--TGAAAGGC
1 TCCTCTAACTAGAGGCAATGAAACTTTAAAT-TCAT-AAA-GC
* * * *
1583845 TCCTCTGACTAGAAGCAATG-AACTTTATATTCAAAAAGC
1 TCCTCTAACTAGAGGCAATGAAACTTTAAATTCATAAAGC
* * * *
1583884 TCCTCTAACCAAAGGCAACGAAACTTTAAATTTATAAAGC
1 TCCTCTAACTAGAGGCAATGAAACTTTAAATTCATAAAGC
* *
1583924 TCATTTAACTAGAGGCAATGAAACTTTAAAT
1 TCCTCTAACTAGAGGCAATGAAACTTTAAAT
1583955 GTTGAAATGC
Statistics
Matches: 180, Mismatches: 41, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
39 39 0.22
40 107 0.59
41 34 0.19
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (40 bp):
TCCTCTAACTAGAGGCAATGAAACTTTAAATTCATAAAGC
Found at i:1583890 original size:120 final size:120
Alignment explanation
Indices: 1583694--1583972 Score: 398
Period size: 120 Copynumber: 2.3 Consensus size: 120
1583684 TCCTCTAAAC
* * * * *
1583694 AGAGGCTATGAAACTTTAAATGTTAAAAGGCTCTTCTAACAAGAGATAATGAACTTTAAATTCAA
1 AGAGGCAATGAAACTTTAAATGTTGAAAGGCTCCTCTGACAAGAGACAATGAACTTTAAATTCAA
* * * * *
1583759 AATGTTTCTCTAACAAAAGGCAACGAAACTTTAAATTCATAAAGCTCCTTTAATT
66 AAAGCTCCTCTAACAAAAGGCAACGAAACTTTAAATTCATAAAGCTCATTTAACT
* * *
1583814 AGAGGCAATGAAATTTTAAATGTTGAAAGGCTCCTCTGACTAGA-AGCAATGAACTTTATATTCA
1 AGAGGCAATGAAACTTTAAATGTTGAAAGGCTCCTCTGACAAGAGA-CAATGAACTTTAAATTCA
* *
1583878 AAAAGCTCCTCTAACCAAAGGCAACGAAACTTTAAATTTATAAAGCTCATTTAACT
65 AAAAGCTCCTCTAACAAAAGGCAACGAAACTTTAAATTCATAAAGCTCATTTAACT
*
1583934 AGAGGCAATGAAACTTTAAATGTTGAAATGCTCCTCTGA
1 AGAGGCAATGAAACTTTAAATGTTGAAAGGCTCCTCTGA
1583973 ATTTAAAAAT
Statistics
Matches: 141, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
119 1 0.01
120 140 0.99
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.29
Consensus pattern (120 bp):
AGAGGCAATGAAACTTTAAATGTTGAAAGGCTCCTCTGACAAGAGACAATGAACTTTAAATTCAA
AAAGCTCCTCTAACAAAAGGCAACGAAACTTTAAATTCATAAAGCTCATTTAACT
Found at i:1590305 original size:21 final size:19
Alignment explanation
Indices: 1590254--1590293 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1590244 CATTTAAATA
*
1590254 ATTTATCATTTT-TTATTTT
1 ATTTATC-TTTTATAATTTT
1590273 ATTTATCTTTTATAATTTT
1 ATTTATCTTTTATAATTTT
1590292 AT
1 AT
1590294 CATTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTATCTTTTATAATTTT
Found at i:1590404 original size:3 final size:3
Alignment explanation
Indices: 1590396--1590421 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1590386 CCTTAAATAG
1590396 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1590422 TTGCATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1592925 original size:18 final size:18
Alignment explanation
Indices: 1592902--1592953 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
1592892 GATAATTTAT
1592902 ATATTTATATTATATAAA
1 ATATTTATATTATATAAA
*
1592920 ATATTTAAAATTTATATAAA
1 ATATTT-ATA-TTATATAAA
*
1592940 A-ATTATGTATTATA
1 ATATT-TATATTATA
1592954 ATTTATATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 11 0.39
19 6 0.21
20 11 0.39
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATATTTATATTATATAAA
Found at i:1593050 original size:24 final size:24
Alignment explanation
Indices: 1593008--1593076 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
1592998 TTAAATTTAT
*
1593008 TTATATT-TTTATTAAAATTTTAAA
1 TTATATTATTT-TTATAATTTTAAA
* *
1593032 TTATATTATTTTTATAATTTTTAT
1 TTATATTATTTTTATAATTTTAAA
1593056 TTATATTATTTTTAT-ATTTTA
1 TTATATTATTTTTATAATTTTA
1593077 CCGTCATGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 5 0.12
24 32 0.80
25 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTATATTATTTTTATAATTTTAAA
Found at i:1593055 original size:15 final size:15
Alignment explanation
Indices: 1593037--1593076 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1593027 TTAAATTATA
1593037 TTATTTTTATAATTT
1 TTATTTTTATAATTT
* *
1593052 TTATTTATATTATTT
1 TTATTTTTATAATTT
1593067 TTATATTTTA
1 TTAT-TTTTA
1593077 CCGTCATGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTTTATAATTT
Found at i:1595182 original size:22 final size:21
Alignment explanation
Indices: 1595150--1595190 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
1595140 TATCACCTTA
1595150 AATTTAAAATTTA-ATTTAATT
1 AATTTAAAA-TTACATTTAATT
1595171 AATTTAATAATTACATTTAA
1 AATTTAA-AATTACATTTAA
1595191 GAGATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTTAAAATTACATTTAATT
Found at i:1595893 original size:21 final size:22
Alignment explanation
Indices: 1595857--1595898 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1595847 CACTGAGTAA
1595857 ATATTCCTGAATCGACCTTGGC
1 ATATTCCTGAATCGACCTTGGC
*
1595879 ATATTCCT-TATCGACCTTGG
1 ATATTCCTGAATCGACCTTGG
1595899 ATACATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (22 bp):
ATATTCCTGAATCGACCTTGGC
Found at i:1598480 original size:13 final size:13
Alignment explanation
Indices: 1598440--1598474 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
1598430 ATTATCACAA
*
1598440 ATTTTTACTATAT
1 ATTTTTATTATAT
1598453 A-TTTTATTATAT
1 ATTTTTATTATAT
1598465 ATTTTTATTA
1 ATTTTTATTA
1598475 ATTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTTTATTATAT
Found at i:1599593 original size:7 final size:7
Alignment explanation
Indices: 1599581--1599657 Score: 59
Period size: 7 Copynumber: 10.6 Consensus size: 7
1599571 TTTGTTCTTT
1599581 TTTTGTA
1 TTTTGTA
1599588 TTTTGTA
1 TTTTGTA
1599595 TTTT-T-
1 TTTTGTA
* *
1599600 TATGGTA
1 TTTTGTA
1599607 TTTTGTA
1 TTTTGTA
1599614 TTTTGATA
1 TTTTG-TA
*
1599622 TTTTTTTTA
1 --TTTTGTA
1599631 TTTTGTA
1 TTTTGTA
1599638 TTTTTGGTA
1 -TTTT-GTA
*
1599647 TTATGTA
1 TTTTGTA
1599654 TTTT
1 TTTT
1599658 TGTTTAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
5 2 0.04
6 2 0.04
7 33 0.60
8 9 0.16
9 5 0.09
10 4 0.07
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (7 bp):
TTTTGTA
Found at i:1599600 original size:16 final size:16
Alignment explanation
Indices: 1599579--1599658 Score: 73
Period size: 16 Copynumber: 5.3 Consensus size: 16
1599569 TTTTTGTTCT
1599579 TTTTTTGTATTTTGTA
1 TTTTTTGTATTTTGTA
*
1599595 -TTTTT-TA--TGGTA
1 TTTTTTGTATTTTGTA
1599607 --TTTTGTATTTTGATA
1 TTTTTTGTATTTTG-TA
*
1599622 TTTTTTTTATTTTGTA
1 TTTTTTGTATTTTGTA
* *
1599638 TTTTTGGTATTATGTA
1 TTTTTTGTATTTTGTA
1599654 TTTTT
1 TTTTT
1599659 GTTTAATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
11 4 0.08
12 6 0.12
14 4 0.08
15 7 0.13
16 20 0.38
17 11 0.21
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.72
Consensus pattern (16 bp):
TTTTTTGTATTTTGTA
Found at i:1599610 original size:26 final size:24
Alignment explanation
Indices: 1599581--1599641 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
1599571 TTTGTTCTTT
1599581 TTTTGTATTTTG-TATTTTTTATGGTA
1 TTTTGTATTTTGATATTTTTT-T--TA
1599607 TTTTGTATTTTGATATTTTTTTTA
1 TTTTGTATTTTGATATTTTTTTTA
1599631 TTTTGTATTTT
1 TTTTGTATTTT
1599642 TGGTATTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 13 0.38
26 13 0.38
27 8 0.24
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (24 bp):
TTTTGTATTTTGATATTTTTTTTA
Done.